Variant report

Variant	rs9832875
Chromosome Location	chr3:42947793-42947794
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:9)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:9 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr3:42947740-42947890	AG09319	gingival:	n/a	n/a
2	CTCF	chr3:42947740-42947890	SK-N-SH_RA	brain:	n/a	n/a
3	YY1	chr3:42947464-42947986	SK-N-SH_RA	brain:	n/a	chr3:42947472-42947483
4	YY1	chr3:42947638-42947991	SK-N-SH_RA	brain:	n/a	n/a
5	CTCF	chr3:42947660-42947890	SAEC	small airway:	n/a	n/a
6	CTCF	chr3:42947740-42947890	HCM	heart:	n/a	n/a
7	E2F6	chr3:42947780-42947966	K562	blood:	n/a	n/a
8	POLR2A	chr3:42947607-42947876	K562	blood:	n/a	n/a
9	HMGN3	chr3:42947550-42948112	K562	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr3:42947771-42947821	AG04449	skin:	fetal
2	chr3:42947771-42947821	BJ	skin:	n/a
3	chr3:42947771-42947821	AG09319	gingival:	n/a
4	chr3:42947771-42947821	GM12878	blood:	n/a
5	chr3:42947771-42947821	A549	lung:	n/a
6	chr3:42947771-42947821	HUVEC	blood vessel:	n/a
7	chr3:42947771-42947821	HIPEpiC	eye:	n/a
8	chr3:42947771-42947821	ovcar-3	ovarian:	n/a
9	chr3:42947771-42947821	ProgFib	skin:	n/a
10	chr3:42947771-42947821	LNCaP	prostate:	n/a
11	chr3:42947771-42947821	T-47D	breast:	n/a
12	chr3:42947771-42947821	HepG2	liver:	n/a
13	chr3:42947771-42947821	RPTEC	kidney:	n/a
14	chr3:42947771-42947821	PrEC	prostate:	n/a
15	chr3:42947771-42947821	GM12892	blood:	n/a
16	chr3:42947771-42947821	HPAEpiC	pulmonary alveolar:	n/a
17	chr3:42947771-42947821	PFSK-1	brain:	n/a
18	chr3:42947771-42947821	NB4	blood:	n/a
19	chr3:42947771-42947821	GM06990	blood:	n/a
20	chr3:42947771-42947821	Jurkat	blood:	n/a
21	chr3:42947771-42947821	NT2-D1	testis:	n/a
22	chr3:42947771-42947821	HEK293	kidney:	embryo
23	chr3:42947771-42947821	BE2_C	brain:	n/a
24	chr3:42947771-42947821	GM19239	blood:	n/a
25	chr3:42947771-42947821	AoSMC	blood vessel:	n/a
26	chr3:42947771-42947821	AG09309	skin:	n/a
27	chr3:42947771-42947821	HCM	heart:	n/a
28	chr3:42947771-42947821	HCT-116	colon:	n/a
29	chr3:42947771-42947821	Caco-2	colon:	n/a
30	chr3:42947771-42947821	NHBE	bronchial:	n/a
31	chr3:42947771-42947821	HNPCEpiC	eye:	n/a
32	chr3:42947771-42947821	SK-N-SH	brain:	n/a
33	chr3:42947771-42947821	SK-N-SH_RA	brain:	n/a
34	chr3:42947771-42947821	Hepatocyte	liver:	n/a
35	chr3:42947771-42947821	HRE	kidney:	n/a
36	chr3:42947771-42947821	HRPEpiC	eye:	n/a
37	chr3:42947771-42947821	HCF	heart:	n/a
38	chr3:42947771-42947821	PANC-1	pancreas:	n/a
39	chr3:42947771-42947821	CMK	blood:	n/a
40	chr3:42947771-42947821	Hela-S3	cervix:	n/a
41	chr3:42947771-42947821	HCPEpiC	choroid plexus:	n/a
42	chr3:42947771-42947821	SKMC	muscle:	n/a
43	chr3:42947771-42947821	SK-N-MC	brain:	n/a
44	chr3:42947771-42947821	K562	blood:	n/a
45	chr3:42947771-42947821	HAEpiC	amniotic membrane:	n/a
46	chr3:42947771-42947821	SAEC	small airway:	n/a
47	chr3:42947771-42947821	U87	brain:	n/a
48	chr3:42947771-42947821	MCF10A-Er-Src	breast:	n/a
49	chr3:42947771-42947821	HL-60	blood:	n/a
50	chr3:42947771-42947821	AG10803	skin:	n/a

No data

Variant related genes	Relation type
ZNF662	TF binding region
ZNF662	CpG island

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10470680	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11129987	0.81[EUR][1000 genomes]
rs11129988	0.81[EUR][1000 genomes]
rs17074894	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1816227	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs28378297	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28601753	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3915020	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs542394	0.80[EUR][1000 genomes]
rs545023	0.80[EUR][1000 genomes]
rs551658	0.81[GIH][hapmap];0.80[EUR][1000 genomes]
rs60616619	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61004728	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62248962	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62249006	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62249007	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62249008	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62249009	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62249011	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62249013	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62249014	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62249015	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62249016	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62249584	0.82[AMR][1000 genomes]
rs6763762	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6773223	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6775999	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6782601	0.81[ASW][hapmap];1.00[MEX][hapmap]
rs6798412	0.89[ASW][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6798520	0.95[GIH][hapmap];0.81[MEX][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6865	0.90[MEX][hapmap]
rs735320	0.89[MEX][hapmap]
rs7617715	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7625959	0.85[GIH][hapmap];0.81[MEX][hapmap]
rs7641452	1.00[ASW][hapmap];0.95[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7644923	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs834579	0.81[GIH][hapmap];0.81[EUR][1000 genomes]
rs834584	0.81[GIH][hapmap]
rs9311330	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9311331	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9808932	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9833284	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9837761	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9852930	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9858270	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv3783	chr3:42926223-42970597	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42946600-42948400	Active TSS	Brain Anterior Caudate	brain
2	chr3:42946800-42948800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr3:42947000-42947800	Active TSS	Duodenum Mucosa	Duodenum
4	chr3:42947000-42947800	Active TSS	Right Ventricle	heart
5	chr3:42947000-42948000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:42947000-42948200	Active TSS	Primary T helper naive cells from peripheral blood	blood
7	chr3:42947000-42948200	Active TSS	Brain Inferior Temporal Lobe	brain
8	chr3:42947000-42948200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:42947000-42948200	Active TSS	Rectal Smooth Muscle	rectum
10	chr3:42947000-42948200	Active TSS	Right Atrium	heart
11	chr3:42947000-42948400	Active TSS	Duodenum Smooth Muscle	Duodenum
12	chr3:42947000-42948400	Active TSS	Pancreatic Islets	Pancreatic Islet
13	chr3:42947000-42948800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr3:42947200-42947800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:42947200-42948000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:42947200-42948000	Active TSS	Pancreas	Pancrea
17	chr3:42947200-42948000	Active TSS	Rectal Mucosa Donor 31	rectum
18	chr3:42947200-42948200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:42947200-42948200	Bivalent/Poised TSS	Primary T regulatory cells fromperipheralblood	blood
20	chr3:42947200-42948200	Active TSS	Brain Cingulate Gyrus	brain
21	chr3:42947200-42948200	Active TSS	Fetal Brain Female	brain
22	chr3:42947200-42948200	Active TSS	Fetal Kidney	kidney
23	chr3:42947200-42948200	Active TSS	Left Ventricle	heart
24	chr3:42947200-42948200	Active TSS	Ovary	ovary
25	chr3:42947200-42948400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
26	chr3:42947200-42948400	Active TSS	Aorta	Aorta
27	chr3:42947200-42948400	Bivalent/Poised TSS	HSMM	muscle
28	chr3:42947200-42948400	Active TSS	NH-A	brain
29	chr3:42947200-42948600	Active TSS	Psoas Muscle	Psoas
30	chr3:42947200-42948800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:42947200-42948800	Flanking Active TSS	Primary hematopoietic stem cells	blood
32	chr3:42947400-42947800	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
33	chr3:42947400-42947800	Bivalent/Poised TSS	Primary T helper cells fromperipheralblood	blood
34	chr3:42947400-42947800	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr3:42947400-42947800	Active TSS	Esophagus	oesophagus
36	chr3:42947400-42947800	Active TSS	Sigmoid Colon	Sigmoid Colon
37	chr3:42947400-42948000	Bivalent/Poised TSS	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr3:42947400-42948000	Active TSS	Primary T killer naive cells fromperipheralblood	blood
39	chr3:42947400-42948000	Bivalent/Poised TSS	Muscle Satellite Cultured Cells	--
40	chr3:42947400-42948000	Active TSS	Liver	Liver
41	chr3:42947400-42948000	Active TSS	Fetal Adrenal Gland	Adrenal Gland
42	chr3:42947400-42948000	Enhancers	Fetal Heart	heart
43	chr3:42947400-42948000	Active TSS	Fetal Lung	lung
44	chr3:42947400-42948000	Active TSS	Fetal Muscle Leg	muscle
45	chr3:42947400-42948000	Active TSS	Lung	lung
46	chr3:42947400-42948000	Active TSS	Placenta Amnion	Placenta Amnion
47	chr3:42947400-42948000	Active TSS	Skeletal Muscle Male	skeletal muscle
48	chr3:42947400-42948000	Active TSS	Stomach Smooth Muscle	stomach
49	chr3:42947400-42948000	Bivalent/Poised TSS	NHEK	skin
50	chr3:42947400-42948200	Bivalent Enhancer	Primary B cells from peripheral blood	blood

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